Question: Trimmomatic data detection
0
gravatar for patrice
16 months ago by
patrice0
patrice0 wrote:

Hello I have a problem by detection data sequences uploaded in format fastqsanger by Tools/NGS : QC and manipulation. In the window "Input FASTQ file (R1/first of pair)", the files aren't detected : "no fastqsanger dataset available.

However, they are detected by FastQC program.

Thank's for your answer.

ADD COMMENTlink modified 16 months ago by Jennifer Hillman Jackson25k • written 16 months ago by patrice0
0
gravatar for Jennifer Hillman Jackson
16 months ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Some tools accept fastq data that has the datatype fastq assigned and others require the more specific datatype fastqsanger to be assigned. The fastq.gz and fastqsanger.gz datatypes are alternatives depending on the actual format of the data.

Trimmomatic accepts fastqsanger or fastqsanger.gz input. FastQC will accept most fastq flavors plus fasta.

Please see these Galaxy Hub help sections for full details:

We hope this helps and please let us know if you need more assistance after setting the proper datatype per tool.

Thanks! Jen, Galaxy team

ADD COMMENTlink written 16 months ago by Jennifer Hillman Jackson25k
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